TPAD-CSF1B - Peptide Group Level

Metadata overview

Data Sparcity

Raw

Filter Missing > 85%

Between sample variability

SPLOM

Pairwise Hierarchical Clustering

Principal Component Analysis

Condition Group

Diagnosis

Run Order

Sex

Age

Sample intensity distributions

Log2 Transformation

Median Normalization

Protein Group Inference

Protein groups are identified adopting the method used in MSDaPl [@Sharma2012] in which the parsimonious protein inference implemented is based on the IDPicker algorithm [@Ma2009]. The steps involved in the grouping of the indistinguishable protein groups are as follows:

  • Step 1: A bipartitie graph is created with edges between peptides and their matching proteins.


  • Step 2: Peptides that match the same set of proteins are merged into a single node in the graph. For example, peptides 3, 7, and 9 match protein A and no other protein.


  • Step 3: Proteins that match the same set of peptide are merged into a single node in the graph. These proteins comprise an indistinguishable protein group.


In this experiment, we report 1356 protein groups and 6809 non-redundant peptides inferred from 8035 peptides measured.

CV Assessment

Sample Pool

Golden West

Differential Analysis

Healthy Control vs AD/MCI CSF

Healthy Control vs PD/PDI-MCI/LBD

AD/MCI CSF vs PD/PDI-MCI/LBD